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Maurice Favreau was ordered by his C.O. Adam Malkovich to investigate the sector. Samus finds his frozen body in the Experiment Floor, and discovers she is being spied on by a female inside a viewing window of a building nearby. Samus chases the woman into the Materials Storehouse and tries to explain that she means no harm. The woman is sceptical, as she saw another trooper kill Maurice earlier. At this moment a large vehicle designed for the movement of cargo attacks Samus and the female, and Samus notices it is being driven by a Federation Marine. She fights off the RB176 Ferrocrusher but discovers that both the woman and driver have escaped.

Adam then orders Samus to return to the Pyrosphere. Samus barely escapes from an avalanche and is then attacked by Super Zebesians who trap her. She defeats them by activating her Wave Beam. On her way out, she is ambushed in the Materials Transfer Lift by a creature called the Rhedogian. Samus successfully repulses the creature, but it flees before she can kill it.

The sector also contained the entrance to Sector Zero. The trek there was difficult for Samus, because there were several rooms with zero or low gravity, making exploration confusing. A large biological experiment known as the Nightmare had caused this, and was defeated by Samus. For unknown reasons, however, the gravity fluxes did not disappear after Nightmare's defeat, but Samus now had her Gravity Feature to help her.

"Sector 2 of the Bottle Ship was called the Cryosphere, and its sub-zero temperatures sustained many recognizable Zebesian life-forms. One was new to me - a massive creature with a spiderlike body that lobbed globes containing noxious gas. As I first encountered it in the Biosphere, it was obviously adapted to many environments."

The Cryosphere may not have been at such an extreme climate; when Samus first enters the Cryosphere from the Main Sector, the computer warns that a malfunction has occurred in the climate control system. While the Cryosphere may be an arctic area, it may have been mild enough to allow researchers to monitor the situation with minimal discomfort.

The Cryosphere may have originally been an aquatic area before the climate control malfunction, similar to Maridia and/or AQA.

Many of the mechanical areas in the sector were also likely maintained at or near room temperature before the climate controls failed.

In the first room of the super-gravity area, Samus is forced to walk on the ceiling. This may be a reference to a scene in the Metroid IV trailer, where Samus can be seen walking on the ceiling at one point.

In one of the icy rooms towards the Materials Storehouse, icicles rendered in 2-D can be seen hanging from the ceiling.